{"id":"W2038036511","doi":"10.1093/nar/gkl123","title":"FootPrinter3: phylogenetic footprinting in partially alignable sequences","year":2006,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":26,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Biology; Footprinting; Phylogenetic tree; Computational biology; Genetics; Conserved sequence; Phylogenetics; Evolutionary biology; Genome; DNA footprinting; Vertebrate; Transcription factor; Gene; Peptide sequence; DNA-binding protein","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.002257854,0.002719614,0.003739166,0.002093536,0.001101978,0.001790793,0.003723693,0.00179789,0.03538893],"category_scores_gemma":[0.002499218,0.002220966,0.002433897,0.002209802,0.0007023567,0.002314582,0.001788815,0.003300974,0.02431484],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005526732,"about_ca_system_score_gemma":0.001143784,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001657574,"about_ca_topic_score_gemma":0.002500436,"domain_scores_codex":[0.9985098,0.0003733114,0.00009246989,0.0003289987,0.0005265109,0.0001688328],"domain_scores_gemma":[0.9991388,0.0003826798,0.00009199433,0.0001982412,0.0001014873,0.00008675784],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.004520167,0.000532794,0.002808119,0.005029284,0.0008658785,0.001133992,0.0005800697,0.01808164,0.3945792,0.01460614,0.2553108,0.3019519],"study_design_scores_gemma":[0.001613633,0.0008117424,0.003375438,0.0003662065,0.0003631185,0.002084929,0.0001936887,0.1749563,0.3407134,0.0327279,0.4422909,0.0005026854],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.01188638,0.001509636,0.6520852,0.0002714947,0.0002664411,0.0003835695,0.04249109,0.2866881,0.004417998],"genre_scores_gemma":[0.04905664,0.001820807,0.7693707,0.0003382073,0.000100526,0.001394308,0.1378987,0.02979299,0.01022704],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.03538893,"threshold_uncertainty_score":0.1183877,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03640922846452394,"score_gpt":0.3148636361910656,"score_spread":0.2784544077265416,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}